Multiple sequence alignment - TraesCS7D01G236000

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G236000 chr7D 100.000 5195 0 0 2109 7303 199131919 199126725 0.000000e+00 9594.0
1 TraesCS7D01G236000 chr7D 100.000 1740 0 0 1 1740 199134027 199132288 0.000000e+00 3214.0
2 TraesCS7D01G236000 chr7D 100.000 82 0 0 6324 6405 199127623 199127704 1.270000e-32 152.0
3 TraesCS7D01G236000 chr7A 94.555 4077 137 39 2289 6324 208528156 208524124 0.000000e+00 6220.0
4 TraesCS7D01G236000 chr7A 92.727 495 24 11 1252 1740 208529247 208528759 0.000000e+00 704.0
5 TraesCS7D01G236000 chr7A 80.602 897 132 22 4247 5106 8229309 8228418 0.000000e+00 654.0
6 TraesCS7D01G236000 chr7A 94.430 395 20 2 6910 7303 208523545 208523152 2.250000e-169 606.0
7 TraesCS7D01G236000 chr7A 89.373 367 27 8 6519 6878 208524124 208523763 1.120000e-122 451.0
8 TraesCS7D01G236000 chr7A 91.892 111 9 0 2189 2299 208528531 208528421 9.810000e-34 156.0
9 TraesCS7D01G236000 chr7A 97.059 34 1 0 4553 4586 8180387 8180354 2.850000e-04 58.4
10 TraesCS7D01G236000 chr7A 97.059 34 1 0 4553 4586 8222587 8222554 2.850000e-04 58.4
11 TraesCS7D01G236000 chr7B 93.468 2235 98 20 4135 6324 163010872 163008641 0.000000e+00 3275.0
12 TraesCS7D01G236000 chr7B 93.683 1488 65 11 2110 3597 163013134 163011676 0.000000e+00 2200.0
13 TraesCS7D01G236000 chr7B 91.867 750 30 14 1008 1740 163013914 163013179 0.000000e+00 1018.0
14 TraesCS7D01G236000 chr7B 95.310 533 22 2 3612 4141 163011444 163010912 0.000000e+00 843.0
15 TraesCS7D01G236000 chr7B 94.118 272 10 5 6716 6983 163004694 163004425 6.820000e-110 409.0
16 TraesCS7D01G236000 chr7B 86.957 299 26 7 6441 6731 163005357 163005064 2.540000e-84 324.0
17 TraesCS7D01G236000 chr7B 86.154 65 5 4 6973 7035 162991454 162991392 4.730000e-07 67.6
18 TraesCS7D01G236000 chr1D 96.517 1005 32 1 1 1002 303307118 303308122 0.000000e+00 1659.0
19 TraesCS7D01G236000 chr1D 94.341 1025 45 7 1 1013 196111404 196110381 0.000000e+00 1559.0
20 TraesCS7D01G236000 chr4D 94.877 1015 42 4 1 1006 58652935 58651922 0.000000e+00 1578.0
21 TraesCS7D01G236000 chr6D 94.862 1012 41 4 1 1002 388145491 388144481 0.000000e+00 1570.0
22 TraesCS7D01G236000 chr3D 94.752 1010 44 3 1 1002 575862677 575861669 0.000000e+00 1563.0
23 TraesCS7D01G236000 chr3D 94.752 1010 36 5 1 1000 462457063 462458065 0.000000e+00 1555.0
24 TraesCS7D01G236000 chr3D 94.193 1016 47 5 1 1005 588789167 588788153 0.000000e+00 1539.0
25 TraesCS7D01G236000 chr3D 96.552 87 2 1 6915 7000 17116173 17116259 7.640000e-30 143.0
26 TraesCS7D01G236000 chr2D 93.602 1016 50 7 1 1005 80451017 80450006 0.000000e+00 1502.0
27 TraesCS7D01G236000 chr3B 92.012 1014 72 5 1 1005 707257799 707256786 0.000000e+00 1415.0
28 TraesCS7D01G236000 chr3B 98.837 86 1 0 6325 6410 557093204 557093119 3.530000e-33 154.0
29 TraesCS7D01G236000 chr3B 98.765 81 1 0 6324 6404 557093124 557093204 2.120000e-30 145.0
30 TraesCS7D01G236000 chr5D 79.663 1957 265 77 2205 4082 480495817 480493915 0.000000e+00 1286.0
31 TraesCS7D01G236000 chr5D 81.431 587 57 23 5581 6124 480491731 480491154 4.050000e-117 433.0
32 TraesCS7D01G236000 chr5D 87.111 225 25 3 3096 3316 367433313 367433537 1.220000e-62 252.0
33 TraesCS7D01G236000 chr5D 96.512 86 2 1 6916 7001 480044748 480044832 2.750000e-29 141.0
34 TraesCS7D01G236000 chr5D 82.278 158 24 2 3385 3541 44502515 44502669 4.600000e-27 134.0
35 TraesCS7D01G236000 chr5D 96.226 53 2 0 4086 4138 557042708 557042656 3.630000e-13 87.9
36 TraesCS7D01G236000 chr5B 80.926 1468 188 45 2678 4086 588782248 588780814 0.000000e+00 1075.0
37 TraesCS7D01G236000 chr5B 81.399 1215 139 48 2913 4076 588692307 588691129 0.000000e+00 911.0
38 TraesCS7D01G236000 chr5B 82.878 549 48 15 5581 6085 588690033 588689487 1.120000e-122 451.0
39 TraesCS7D01G236000 chr5B 88.934 244 26 1 3844 4086 588835149 588834906 4.280000e-77 300.0
40 TraesCS7D01G236000 chr5B 85.766 274 30 8 5243 5509 588690823 588690552 1.550000e-71 281.0
41 TraesCS7D01G236000 chr5B 78.330 443 63 17 3429 3845 588840779 588840344 9.400000e-64 255.0
42 TraesCS7D01G236000 chr5B 96.512 86 2 1 6916 7001 587796686 587796770 2.750000e-29 141.0
43 TraesCS7D01G236000 chr5B 94.318 88 3 2 6927 7012 681214306 681214219 4.600000e-27 134.0
44 TraesCS7D01G236000 chr5A 82.702 1214 140 39 2920 4077 599394538 599393339 0.000000e+00 1014.0
45 TraesCS7D01G236000 chr5A 81.114 1382 155 57 2762 4075 599454905 599453562 0.000000e+00 1009.0
46 TraesCS7D01G236000 chr5A 80.311 1158 165 39 2205 3319 599257325 599256188 0.000000e+00 817.0
47 TraesCS7D01G236000 chr5A 80.580 690 92 26 3385 4068 599254761 599254108 1.830000e-135 494.0
48 TraesCS7D01G236000 chr5A 82.095 592 49 23 5581 6124 599253043 599252461 3.110000e-123 453.0
49 TraesCS7D01G236000 chr5A 96.552 87 2 1 6915 7001 567921718 567921633 7.640000e-30 143.0
50 TraesCS7D01G236000 chr1A 85.333 225 29 3 3096 3316 369500929 369501153 5.700000e-56 230.0
51 TraesCS7D01G236000 chr6B 76.151 478 73 19 3134 3597 646167348 646167798 5.740000e-51 213.0
52 TraesCS7D01G236000 chr6B 83.544 158 22 2 3385 3541 62247774 62247928 2.120000e-30 145.0
53 TraesCS7D01G236000 chr6B 95.556 90 1 3 6325 6413 299826146 299826059 2.750000e-29 141.0
54 TraesCS7D01G236000 chr6B 82.911 158 23 2 3385 3541 62246656 62246810 9.880000e-29 139.0
55 TraesCS7D01G236000 chr6B 82.911 158 23 2 3385 3541 62247215 62247369 9.880000e-29 139.0
56 TraesCS7D01G236000 chr6B 82.911 158 23 2 3385 3541 653305072 653305226 9.880000e-29 139.0
57 TraesCS7D01G236000 chr4A 76.959 434 54 22 3145 3539 337547513 337547939 9.600000e-49 206.0
58 TraesCS7D01G236000 chr4A 94.444 90 1 4 6324 6411 735552503 735552416 1.280000e-27 135.0
59 TraesCS7D01G236000 chr2B 100.000 83 0 0 6325 6407 675337233 675337151 3.530000e-33 154.0
60 TraesCS7D01G236000 chr2B 100.000 81 0 0 6324 6404 675337153 675337233 4.560000e-32 150.0
61 TraesCS7D01G236000 chr2B 95.604 91 3 1 6318 6407 90401097 90401187 2.120000e-30 145.0
62 TraesCS7D01G236000 chr4B 93.939 99 4 2 6916 7013 13083050 13083147 1.640000e-31 148.0
63 TraesCS7D01G236000 chr2A 97.647 85 2 0 6916 7000 19441826 19441742 5.900000e-31 147.0
64 TraesCS7D01G236000 chr1B 90.291 103 3 3 6324 6421 436383665 436383765 2.140000e-25 128.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G236000 chr7D 199126725 199134027 7302 True 6404.000000 9594 100.000000 1 7303 2 chr7D.!!$R1 7302
1 TraesCS7D01G236000 chr7A 208523152 208529247 6095 True 1627.400000 6220 92.595400 1252 7303 5 chr7A.!!$R4 6051
2 TraesCS7D01G236000 chr7A 8228418 8229309 891 True 654.000000 654 80.602000 4247 5106 1 chr7A.!!$R3 859
3 TraesCS7D01G236000 chr7B 163004425 163013914 9489 True 1344.833333 3275 92.567167 1008 6983 6 chr7B.!!$R2 5975
4 TraesCS7D01G236000 chr1D 303307118 303308122 1004 False 1659.000000 1659 96.517000 1 1002 1 chr1D.!!$F1 1001
5 TraesCS7D01G236000 chr1D 196110381 196111404 1023 True 1559.000000 1559 94.341000 1 1013 1 chr1D.!!$R1 1012
6 TraesCS7D01G236000 chr4D 58651922 58652935 1013 True 1578.000000 1578 94.877000 1 1006 1 chr4D.!!$R1 1005
7 TraesCS7D01G236000 chr6D 388144481 388145491 1010 True 1570.000000 1570 94.862000 1 1002 1 chr6D.!!$R1 1001
8 TraesCS7D01G236000 chr3D 575861669 575862677 1008 True 1563.000000 1563 94.752000 1 1002 1 chr3D.!!$R1 1001
9 TraesCS7D01G236000 chr3D 462457063 462458065 1002 False 1555.000000 1555 94.752000 1 1000 1 chr3D.!!$F2 999
10 TraesCS7D01G236000 chr3D 588788153 588789167 1014 True 1539.000000 1539 94.193000 1 1005 1 chr3D.!!$R2 1004
11 TraesCS7D01G236000 chr2D 80450006 80451017 1011 True 1502.000000 1502 93.602000 1 1005 1 chr2D.!!$R1 1004
12 TraesCS7D01G236000 chr3B 707256786 707257799 1013 True 1415.000000 1415 92.012000 1 1005 1 chr3B.!!$R2 1004
13 TraesCS7D01G236000 chr5D 480491154 480495817 4663 True 859.500000 1286 80.547000 2205 6124 2 chr5D.!!$R2 3919
14 TraesCS7D01G236000 chr5B 588780814 588782248 1434 True 1075.000000 1075 80.926000 2678 4086 1 chr5B.!!$R1 1408
15 TraesCS7D01G236000 chr5B 588689487 588692307 2820 True 547.666667 911 83.347667 2913 6085 3 chr5B.!!$R5 3172
16 TraesCS7D01G236000 chr5A 599393339 599394538 1199 True 1014.000000 1014 82.702000 2920 4077 1 chr5A.!!$R2 1157
17 TraesCS7D01G236000 chr5A 599453562 599454905 1343 True 1009.000000 1009 81.114000 2762 4075 1 chr5A.!!$R3 1313
18 TraesCS7D01G236000 chr5A 599252461 599257325 4864 True 588.000000 817 80.995333 2205 6124 3 chr5A.!!$R4 3919

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
771 779 0.324368 GGGGAAAAGCGGGGAGAAAT 60.324 55.0 0.0 0.0 0.00 2.17 F
1637 1673 0.251742 CAATTGCTGGAGTTGGGGGA 60.252 55.0 0.0 0.0 0.00 4.81 F
1734 1775 0.033601 TTGCCTCCAAGTGGTGTGTT 60.034 50.0 0.0 0.0 36.34 3.32 F
2179 2220 0.681175 GCATTGGTTGGGAAGTTGCT 59.319 50.0 0.0 0.0 0.00 3.91 F
2780 3141 1.221414 GGATATGTGGCTCTCAACGC 58.779 55.0 0.0 0.0 0.00 4.84 F
4598 6669 0.166814 GTTGTGTCGATGAGGCAAGC 59.833 55.0 0.0 0.0 35.50 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1715 1756 0.033601 AACACACCACTTGGAGGCAA 60.034 50.000 1.14 0.0 38.94 4.52 R
3361 5096 2.238898 ACAATGTAGTCACCCTTAGGCC 59.761 50.000 0.00 0.0 36.11 5.19 R
3614 5606 4.755629 GGGAACTACTCCTGTTCAAAACTC 59.244 45.833 8.54 0.0 44.68 3.01 R
3836 5845 2.295253 AGCCTCGAATTACAAGGTCG 57.705 50.000 0.00 0.0 36.12 4.79 R
4661 6735 1.414181 CAGCATTGTATCTCCGAGGGT 59.586 52.381 0.00 0.0 0.00 4.34 R
6458 13645 0.179051 CCTCTGATTGCTCTCTGCCC 60.179 60.000 0.00 0.0 42.00 5.36 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 0.397675 TGAGATCCACCGCCTCATCT 60.398 55.000 0.00 0.00 32.57 2.90
127 128 3.429141 GTCTCGGTCTCGTCGGCA 61.429 66.667 0.00 0.00 37.69 5.69
624 631 0.676782 GGCTTCCTTTGCTTCGGCTA 60.677 55.000 0.00 0.00 42.37 3.93
771 779 0.324368 GGGGAAAAGCGGGGAGAAAT 60.324 55.000 0.00 0.00 0.00 2.17
922 935 0.887387 CGAAAAACGGGCTTCTGGGA 60.887 55.000 0.00 0.00 38.46 4.37
923 936 1.545841 GAAAAACGGGCTTCTGGGAT 58.454 50.000 0.00 0.00 0.00 3.85
929 946 1.617018 CGGGCTTCTGGGATGACTGA 61.617 60.000 0.00 0.00 0.00 3.41
1008 1025 2.617532 GGCTGGAGATGCTCTCAGTTTT 60.618 50.000 13.06 0.00 45.12 2.43
1009 1026 2.677337 GCTGGAGATGCTCTCAGTTTTC 59.323 50.000 13.06 0.00 45.12 2.29
1012 1029 4.978099 TGGAGATGCTCTCAGTTTTCTTT 58.022 39.130 13.06 0.00 45.12 2.52
1073 1090 2.750350 CGCACTCTTTCCCCAGGT 59.250 61.111 0.00 0.00 0.00 4.00
1153 1180 0.396417 CCATCTCTCCCTCTGTCGGT 60.396 60.000 0.00 0.00 0.00 4.69
1157 1184 3.374402 CTCCCTCTGTCGGTGCGT 61.374 66.667 0.00 0.00 0.00 5.24
1286 1313 3.470888 CCCCGTCCGCCATCTCTT 61.471 66.667 0.00 0.00 0.00 2.85
1368 1396 6.669125 TTTTCAAGTTCATGGTGGATTGAT 57.331 33.333 0.00 0.00 0.00 2.57
1395 1423 9.056005 TCTATATGATGCAATTTTCCTGTGTAC 57.944 33.333 0.00 0.00 0.00 2.90
1396 1424 4.782019 TGATGCAATTTTCCTGTGTACC 57.218 40.909 0.00 0.00 0.00 3.34
1397 1425 3.190327 TGATGCAATTTTCCTGTGTACCG 59.810 43.478 0.00 0.00 0.00 4.02
1398 1426 2.577700 TGCAATTTTCCTGTGTACCGT 58.422 42.857 0.00 0.00 0.00 4.83
1399 1427 3.741249 TGCAATTTTCCTGTGTACCGTA 58.259 40.909 0.00 0.00 0.00 4.02
1451 1486 8.471361 TTTTGCGCATGTGAATTTGATTATAA 57.529 26.923 12.75 0.00 0.00 0.98
1487 1522 9.531942 TGAATATGTGATGGAATTTTTATGCAC 57.468 29.630 0.00 0.00 0.00 4.57
1512 1547 6.040729 CACATTATGGAATTTGTGAGGGCATA 59.959 38.462 0.29 0.00 39.93 3.14
1557 1592 1.311839 CGCGATGCAATATTTCTGCG 58.688 50.000 0.00 0.00 42.97 5.18
1582 1617 9.452065 CGTATACGATGGGATTTCTGAATATAG 57.548 37.037 20.58 0.00 43.02 1.31
1586 1621 8.372877 ACGATGGGATTTCTGAATATAGAGAT 57.627 34.615 0.00 0.00 0.00 2.75
1637 1673 0.251742 CAATTGCTGGAGTTGGGGGA 60.252 55.000 0.00 0.00 0.00 4.81
1715 1756 3.764434 TGGAGATGCTCTTACTTTCTCGT 59.236 43.478 0.00 0.00 34.89 4.18
1729 1770 1.071471 CTCGTTGCCTCCAAGTGGT 59.929 57.895 0.00 0.00 36.34 4.16
1734 1775 0.033601 TTGCCTCCAAGTGGTGTGTT 60.034 50.000 0.00 0.00 36.34 3.32
2159 2200 4.459089 GAGGTGGAGGTCAGGCGC 62.459 72.222 0.00 0.00 0.00 6.53
2179 2220 0.681175 GCATTGGTTGGGAAGTTGCT 59.319 50.000 0.00 0.00 0.00 3.91
2182 2223 1.398692 TTGGTTGGGAAGTTGCTGTC 58.601 50.000 0.00 0.00 0.00 3.51
2293 2335 3.202818 TCCATACTGGTAACCGACTAGGA 59.797 47.826 0.00 0.00 40.89 2.94
2310 2627 7.364200 CGACTAGGAGAATGACTGGTTTATAG 58.636 42.308 0.00 0.00 0.00 1.31
2315 2632 8.152023 AGGAGAATGACTGGTTTATAGACTTT 57.848 34.615 0.00 0.00 0.00 2.66
2316 2633 8.606830 AGGAGAATGACTGGTTTATAGACTTTT 58.393 33.333 0.00 0.00 0.00 2.27
2389 2706 8.277720 AGAGAGTGTATATGGTAGAGGACTAA 57.722 38.462 0.00 0.00 0.00 2.24
2390 2707 8.725256 AGAGAGTGTATATGGTAGAGGACTAAA 58.275 37.037 0.00 0.00 0.00 1.85
2547 2895 8.103948 ACTTCAATCATTAAAGAAGTGGACAG 57.896 34.615 5.93 1.79 46.30 3.51
2780 3141 1.221414 GGATATGTGGCTCTCAACGC 58.779 55.000 0.00 0.00 0.00 4.84
2865 3242 4.141711 GGTGGCTTGTTAGGTAGATCATGA 60.142 45.833 0.00 0.00 0.00 3.07
3098 3483 5.409214 GTGCATGGCAAGATTTTGTTTACAT 59.591 36.000 0.00 0.00 41.47 2.29
3316 3706 9.379770 TCATTATCTGTTAAGGGATGTGAGATA 57.620 33.333 0.00 0.00 0.00 1.98
3345 5078 9.314321 GTATGTTGTTTAGTGTATGCTCTGTAT 57.686 33.333 0.00 0.00 0.00 2.29
3361 5096 6.204688 TGCTCTGTATTTTGTACAAGGTCAAG 59.795 38.462 8.56 5.97 0.00 3.02
3390 5143 4.953579 AGGGTGACTACATTGTTGTTTGTT 59.046 37.500 5.38 0.00 37.28 2.83
3476 5231 1.555992 TGTTCATGTAGTTACCCCGGG 59.444 52.381 15.80 15.80 0.00 5.73
3592 5367 8.831550 AGTTTGTCTCTTGAGATTAAACTGTTC 58.168 33.333 26.37 12.53 37.04 3.18
3804 5813 4.568072 AACTTGTACCATGGATGCACTA 57.432 40.909 21.47 6.63 0.00 2.74
3811 5820 2.779430 ACCATGGATGCACTATCTTCCA 59.221 45.455 21.47 6.91 42.24 3.53
3836 5845 5.107875 GCATTGCTGTTAGTACAACTTTTGC 60.108 40.000 0.16 3.36 32.92 3.68
3842 5851 4.877251 TGTTAGTACAACTTTTGCGACCTT 59.123 37.500 0.00 0.00 0.00 3.50
4077 6087 5.640147 TGTAACCCCTTTCTGAATTCATGT 58.360 37.500 8.96 0.00 0.00 3.21
4413 6483 1.795768 TAAGCAAGAACAGAGGCACG 58.204 50.000 0.00 0.00 0.00 5.34
4458 6528 8.909923 TGTTCTATATAGTACTAGCAGTTGCAA 58.090 33.333 17.34 0.00 45.16 4.08
4567 6637 5.068234 AGAATAATCACTTCCGTCGACAA 57.932 39.130 17.16 1.99 0.00 3.18
4598 6669 0.166814 GTTGTGTCGATGAGGCAAGC 59.833 55.000 0.00 0.00 35.50 4.01
4643 6717 2.103537 AAACCTTTACGCCGCTGTAT 57.896 45.000 0.00 0.00 0.00 2.29
4661 6735 1.169661 ATTGCGGAGTTGTTGGCGAA 61.170 50.000 0.00 0.00 0.00 4.70
4723 6797 2.223923 CGAATTGAGGAATCGAGGAGCT 60.224 50.000 0.00 0.00 0.00 4.09
4772 6850 3.740397 GCCAAGCATGCGAGCACA 61.740 61.111 20.21 0.00 36.85 4.57
4877 6976 1.474143 GGTGGCTGACTTAGATGGAGC 60.474 57.143 0.00 0.00 0.00 4.70
5030 7136 1.340114 GGCCCCACTAGTTCTCCTTTG 60.340 57.143 0.00 0.00 0.00 2.77
5307 7566 0.466922 CCATGCTCCCATCCTGTTCC 60.467 60.000 0.00 0.00 0.00 3.62
5325 7590 5.956642 TGTTCCGGGAACTATTAAAAATGC 58.043 37.500 33.20 9.34 42.39 3.56
5331 7596 9.280174 TCCGGGAACTATTAAAAATGCTATTAG 57.720 33.333 0.00 0.00 0.00 1.73
5699 9597 4.953579 TGAGGTTAATCCCAAGCAATTACC 59.046 41.667 0.00 0.00 36.75 2.85
5739 9640 2.817844 ACAAAAAGGCTTACGACCATCC 59.182 45.455 0.00 0.00 0.00 3.51
5740 9641 3.081804 CAAAAAGGCTTACGACCATCCT 58.918 45.455 0.00 0.00 0.00 3.24
6018 9933 1.531602 GCCTTCTTGCTTGGTGGGT 60.532 57.895 0.00 0.00 0.00 4.51
6055 9994 0.912006 AAGAGGAAGAGGGTGAGGGC 60.912 60.000 0.00 0.00 0.00 5.19
6064 10003 2.125106 GGTGAGGGCGATGGTGAC 60.125 66.667 0.00 0.00 0.00 3.67
6128 10067 8.698210 TCTGGTAACTCTTTGTGTAACTAGAAA 58.302 33.333 0.00 0.00 35.39 2.52
6241 10180 4.056050 CAAGCAAGCAAGCAAAGAAGAAT 58.944 39.130 3.19 0.00 36.85 2.40
6242 10181 3.650139 AGCAAGCAAGCAAAGAAGAATG 58.350 40.909 3.19 0.00 36.85 2.67
6243 10182 2.735134 GCAAGCAAGCAAAGAAGAATGG 59.265 45.455 0.00 0.00 0.00 3.16
6245 10184 3.930634 AGCAAGCAAAGAAGAATGGTC 57.069 42.857 0.00 0.00 0.00 4.02
6246 10185 3.225104 AGCAAGCAAAGAAGAATGGTCA 58.775 40.909 0.00 0.00 0.00 4.02
6247 10186 3.255149 AGCAAGCAAAGAAGAATGGTCAG 59.745 43.478 0.00 0.00 0.00 3.51
6248 10187 3.254166 GCAAGCAAAGAAGAATGGTCAGA 59.746 43.478 0.00 0.00 0.00 3.27
6249 10188 4.082354 GCAAGCAAAGAAGAATGGTCAGAT 60.082 41.667 0.00 0.00 0.00 2.90
6275 10216 4.042311 TGAAGTGGAAAACATAGGGCACTA 59.958 41.667 0.00 0.00 0.00 2.74
6324 10265 2.684881 CAACAATCGCTGGCTATTTCCT 59.315 45.455 0.00 0.00 0.00 3.36
6325 10266 3.838244 ACAATCGCTGGCTATTTCCTA 57.162 42.857 0.00 0.00 0.00 2.94
6326 10267 3.467803 ACAATCGCTGGCTATTTCCTAC 58.532 45.455 0.00 0.00 0.00 3.18
6327 10268 3.134804 ACAATCGCTGGCTATTTCCTACT 59.865 43.478 0.00 0.00 0.00 2.57
6328 10269 3.669251 ATCGCTGGCTATTTCCTACTC 57.331 47.619 0.00 0.00 0.00 2.59
6329 10270 1.687123 TCGCTGGCTATTTCCTACTCC 59.313 52.381 0.00 0.00 0.00 3.85
6330 10271 1.270358 CGCTGGCTATTTCCTACTCCC 60.270 57.143 0.00 0.00 0.00 4.30
6331 10272 2.050918 GCTGGCTATTTCCTACTCCCT 58.949 52.381 0.00 0.00 0.00 4.20
6332 10273 2.037902 GCTGGCTATTTCCTACTCCCTC 59.962 54.545 0.00 0.00 0.00 4.30
6333 10274 2.635427 CTGGCTATTTCCTACTCCCTCC 59.365 54.545 0.00 0.00 0.00 4.30
6334 10275 1.619332 GGCTATTTCCTACTCCCTCCG 59.381 57.143 0.00 0.00 0.00 4.63
6335 10276 2.317973 GCTATTTCCTACTCCCTCCGT 58.682 52.381 0.00 0.00 0.00 4.69
6336 10277 2.296752 GCTATTTCCTACTCCCTCCGTC 59.703 54.545 0.00 0.00 0.00 4.79
6337 10278 1.790818 ATTTCCTACTCCCTCCGTCC 58.209 55.000 0.00 0.00 0.00 4.79
6338 10279 0.325016 TTTCCTACTCCCTCCGTCCC 60.325 60.000 0.00 0.00 0.00 4.46
6339 10280 1.512201 TTCCTACTCCCTCCGTCCCA 61.512 60.000 0.00 0.00 0.00 4.37
6340 10281 1.233369 CCTACTCCCTCCGTCCCAT 59.767 63.158 0.00 0.00 0.00 4.00
6341 10282 0.481567 CCTACTCCCTCCGTCCCATA 59.518 60.000 0.00 0.00 0.00 2.74
6342 10283 1.133262 CCTACTCCCTCCGTCCCATAA 60.133 57.143 0.00 0.00 0.00 1.90
6343 10284 2.492940 CCTACTCCCTCCGTCCCATAAT 60.493 54.545 0.00 0.00 0.00 1.28
6344 10285 3.245514 CCTACTCCCTCCGTCCCATAATA 60.246 52.174 0.00 0.00 0.00 0.98
6345 10286 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
6346 10287 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
6347 10288 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
6348 10289 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
6349 10290 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
6350 10291 5.657446 TCCCTCCGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
6351 10292 5.482878 TCCCTCCGTCCCATAATATAAGAAC 59.517 44.000 0.00 0.00 0.00 3.01
6352 10293 5.408356 CCTCCGTCCCATAATATAAGAACG 58.592 45.833 0.00 0.00 0.00 3.95
6353 10294 5.047519 CCTCCGTCCCATAATATAAGAACGT 60.048 44.000 0.00 0.00 0.00 3.99
6354 10295 6.409524 TCCGTCCCATAATATAAGAACGTT 57.590 37.500 0.00 0.00 0.00 3.99
6355 10296 6.819284 TCCGTCCCATAATATAAGAACGTTT 58.181 36.000 0.46 0.00 0.00 3.60
6356 10297 7.274447 TCCGTCCCATAATATAAGAACGTTTT 58.726 34.615 0.46 0.00 0.00 2.43
6357 10298 7.769970 TCCGTCCCATAATATAAGAACGTTTTT 59.230 33.333 9.22 9.22 0.00 1.94
6358 10299 7.853929 CCGTCCCATAATATAAGAACGTTTTTG 59.146 37.037 13.87 0.00 0.00 2.44
6359 10300 8.605746 CGTCCCATAATATAAGAACGTTTTTGA 58.394 33.333 13.87 2.81 0.00 2.69
6360 10301 9.712359 GTCCCATAATATAAGAACGTTTTTGAC 57.288 33.333 13.87 5.89 0.00 3.18
6361 10302 9.451002 TCCCATAATATAAGAACGTTTTTGACA 57.549 29.630 13.87 0.01 0.00 3.58
6362 10303 9.498307 CCCATAATATAAGAACGTTTTTGACAC 57.502 33.333 13.87 0.00 0.00 3.67
6383 10324 7.781548 ACACTAGTGTCAAAAACGTTCTTAT 57.218 32.000 22.95 0.00 40.24 1.73
6384 10325 8.876275 ACACTAGTGTCAAAAACGTTCTTATA 57.124 30.769 22.95 0.00 40.24 0.98
6385 10326 9.485206 ACACTAGTGTCAAAAACGTTCTTATAT 57.515 29.630 22.95 0.00 40.24 0.86
6391 10332 9.498307 GTGTCAAAAACGTTCTTATATTATGGG 57.502 33.333 0.00 0.00 0.00 4.00
6392 10333 9.451002 TGTCAAAAACGTTCTTATATTATGGGA 57.549 29.630 0.00 0.00 0.00 4.37
6393 10334 9.712359 GTCAAAAACGTTCTTATATTATGGGAC 57.288 33.333 0.00 0.00 0.00 4.46
6394 10335 8.605746 TCAAAAACGTTCTTATATTATGGGACG 58.394 33.333 0.00 9.33 0.00 4.79
6395 10336 7.486802 AAAACGTTCTTATATTATGGGACGG 57.513 36.000 0.00 1.76 0.00 4.79
6396 10337 6.409524 AACGTTCTTATATTATGGGACGGA 57.590 37.500 0.00 0.00 0.00 4.69
6397 10338 6.022163 ACGTTCTTATATTATGGGACGGAG 57.978 41.667 13.18 0.00 0.00 4.63
6398 10339 5.047519 ACGTTCTTATATTATGGGACGGAGG 60.048 44.000 13.18 0.00 0.00 4.30
6399 10340 5.623824 CGTTCTTATATTATGGGACGGAGGG 60.624 48.000 0.00 0.00 0.00 4.30
6400 10341 5.279562 TCTTATATTATGGGACGGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
6401 10342 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
6402 10343 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
6427 10368 9.561069 GTAGTTGATAATAATGACCACCAAGAT 57.439 33.333 0.00 0.00 0.00 2.40
6465 13652 0.321671 TTTTCACGAGAGGGGCAGAG 59.678 55.000 0.00 0.00 33.12 3.35
6489 13676 3.118847 GCAATCAGAGGAGACAGTCATCA 60.119 47.826 2.66 0.00 38.52 3.07
6546 13733 8.576442 AGTTCACAACTGATAAAAATCCGAATT 58.424 29.630 0.00 0.00 41.01 2.17
6581 13772 3.821033 GAGACAGGGTGCAAACAAATAGT 59.179 43.478 0.00 0.00 0.00 2.12
6594 13785 6.128849 GCAAACAAATAGTAGTACGTCGGAAA 60.129 38.462 0.00 0.00 0.00 3.13
6600 13791 2.746362 AGTAGTACGTCGGAAACAGAGG 59.254 50.000 0.00 0.00 0.00 3.69
6610 13801 1.282157 GGAAACAGAGGGGTACATGCT 59.718 52.381 0.00 0.00 0.00 3.79
6617 13808 2.909006 AGAGGGGTACATGCTCATATGG 59.091 50.000 2.13 0.00 32.32 2.74
6625 13816 6.595716 GGGTACATGCTCATATGGATAACTTC 59.404 42.308 2.13 0.00 32.32 3.01
6632 13823 7.013220 TGCTCATATGGATAACTTCTACTCCT 58.987 38.462 2.13 0.00 0.00 3.69
6633 13824 7.177568 TGCTCATATGGATAACTTCTACTCCTC 59.822 40.741 2.13 0.00 0.00 3.71
6634 13825 7.627513 GCTCATATGGATAACTTCTACTCCTCG 60.628 44.444 2.13 0.00 0.00 4.63
6652 13843 5.680619 TCCTCGCATTCCATATTAGTTGTT 58.319 37.500 0.00 0.00 0.00 2.83
6670 13861 9.826574 TTAGTTGTTGCTAAAACGGATATATCT 57.173 29.630 12.42 0.00 0.00 1.98
6683 13874 8.753497 AACGGATATATCTAGATACATCTGCA 57.247 34.615 28.46 5.14 37.18 4.41
6688 13879 9.844790 GATATATCTAGATACATCTGCATCAGC 57.155 37.037 19.55 0.00 37.76 4.26
6782 14362 0.541863 ACACGGCTCCCCTTCTTATG 59.458 55.000 0.00 0.00 0.00 1.90
7013 14778 6.807708 CTATGAAAGCTGTGATGAAATTGC 57.192 37.500 0.00 0.00 0.00 3.56
7027 14792 6.375736 TGATGAAATTGCTTCGGGTTTATACA 59.624 34.615 0.00 0.00 36.78 2.29
7031 14796 8.908903 TGAAATTGCTTCGGGTTTATACATAAT 58.091 29.630 0.00 0.00 36.78 1.28
7064 14829 1.998530 ATCCAACGGATCCTGGCAA 59.001 52.632 14.06 0.20 38.09 4.52
7084 14849 3.339253 AGCATCACTGTAGCAACATCA 57.661 42.857 0.00 0.00 34.37 3.07
7185 14951 2.100197 TGGATCGGTCAGTACTTCCTG 58.900 52.381 9.80 1.65 0.00 3.86
7190 14956 2.557056 TCGGTCAGTACTTCCTGTTCTG 59.443 50.000 10.84 0.00 42.90 3.02
7231 14997 3.860754 GCCGCTTTAGCCAATTCAAAAGT 60.861 43.478 0.00 0.00 37.91 2.66
7242 15008 6.017687 AGCCAATTCAAAAGTGCAAAAAGATC 60.018 34.615 0.00 0.00 0.00 2.75
7282 15048 0.243907 GAACTGCGTGTGCCTCTCTA 59.756 55.000 0.00 0.00 41.78 2.43
7287 15053 3.889538 ACTGCGTGTGCCTCTCTAATATA 59.110 43.478 0.00 0.00 41.78 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 78 1.464376 ATCATCGCGGAAGGATCGGT 61.464 55.000 6.13 0.00 0.00 4.69
195 196 1.404391 CTCCATACAACTACTCGCCGT 59.596 52.381 0.00 0.00 0.00 5.68
613 620 2.125673 GTCGCCTAGCCGAAGCAA 60.126 61.111 0.00 0.00 43.56 3.91
876 889 4.778143 GCCGAATCTGGTGCCGGT 62.778 66.667 1.90 0.00 43.51 5.28
1049 1066 2.359975 GAAAGAGTGCGGGGTGGG 60.360 66.667 0.00 0.00 0.00 4.61
1121 1141 2.844839 GATGGGGACGGGGAGGAG 60.845 72.222 0.00 0.00 0.00 3.69
1129 1149 1.112315 CAGAGGGAGAGATGGGGACG 61.112 65.000 0.00 0.00 0.00 4.79
1157 1184 1.602888 GCGAGGCGGTAGGGATAGA 60.603 63.158 0.00 0.00 0.00 1.98
1200 1227 3.311110 GGAGTGACGGCTGGTGGA 61.311 66.667 0.00 0.00 0.00 4.02
1234 1261 3.407967 GATGGGGTTCGGGAGGCA 61.408 66.667 0.00 0.00 0.00 4.75
1332 1359 8.606602 CATGAACTTGAAAAAGAAAAGGGAAAG 58.393 33.333 0.00 0.00 0.00 2.62
1368 1396 8.523915 ACACAGGAAAATTGCATCATATAGAA 57.476 30.769 0.00 0.00 0.00 2.10
1396 1424 9.166126 CAACCGTATATGCATATACAGTATACG 57.834 37.037 37.62 29.55 43.23 3.06
1417 1452 1.791785 ACATGCGCAAAAATTCAACCG 59.208 42.857 17.11 0.00 0.00 4.44
1451 1486 6.425735 TCCATCACATATTCACCAACAGATT 58.574 36.000 0.00 0.00 0.00 2.40
1487 1522 4.160065 TGCCCTCACAAATTCCATAATGTG 59.840 41.667 0.18 0.18 43.42 3.21
1512 1547 9.687210 GTATGCACATCATCAATTTGAACATAT 57.313 29.630 2.68 0.00 36.63 1.78
1549 1584 4.537135 ATCCCATCGTATACGCAGAAAT 57.463 40.909 20.42 5.51 39.60 2.17
1648 1684 2.039818 GGCTACCCCTACTTTTGAGC 57.960 55.000 0.00 0.00 0.00 4.26
1715 1756 0.033601 AACACACCACTTGGAGGCAA 60.034 50.000 1.14 0.00 38.94 4.52
2159 2200 0.667184 GCAACTTCCCAACCAATGCG 60.667 55.000 0.00 0.00 0.00 4.73
2229 2270 3.542648 TCATCTTACCAGAGTCGTCGAT 58.457 45.455 0.00 0.00 30.36 3.59
2293 2335 7.121315 GGCAAAAGTCTATAAACCAGTCATTCT 59.879 37.037 0.00 0.00 0.00 2.40
2310 2627 2.149973 ATCCTGGATGGGCAAAAGTC 57.850 50.000 8.75 0.00 36.20 3.01
2315 2632 1.002069 AGACAATCCTGGATGGGCAA 58.998 50.000 19.25 0.00 36.20 4.52
2316 2633 0.548031 GAGACAATCCTGGATGGGCA 59.452 55.000 19.25 0.00 36.20 5.36
2389 2706 7.508296 CCCTACACCCTATACACAACTATACTT 59.492 40.741 0.00 0.00 0.00 2.24
2390 2707 7.008941 CCCTACACCCTATACACAACTATACT 58.991 42.308 0.00 0.00 0.00 2.12
2435 2768 1.067354 CAATTTGAGGAAGGTGCAGGC 60.067 52.381 0.00 0.00 0.00 4.85
2547 2895 6.741358 GGTATGCGTTCTTTACTCAAAATGTC 59.259 38.462 0.00 0.00 0.00 3.06
2688 3045 5.805728 AGATAAACCGAATTGAGTGAACCT 58.194 37.500 0.00 0.00 0.00 3.50
2865 3242 6.208204 ACAAGCTGCAAGAAGAAATGTCTAAT 59.792 34.615 1.02 0.00 34.07 1.73
3316 3706 8.668353 CAGAGCATACACTAAACAACATACAAT 58.332 33.333 0.00 0.00 0.00 2.71
3345 5078 3.306472 AGGCCTTGACCTTGTACAAAA 57.694 42.857 10.03 0.01 36.28 2.44
3361 5096 2.238898 ACAATGTAGTCACCCTTAGGCC 59.761 50.000 0.00 0.00 36.11 5.19
3614 5606 4.755629 GGGAACTACTCCTGTTCAAAACTC 59.244 45.833 8.54 0.00 44.68 3.01
3811 5820 6.208644 CAAAAGTTGTACTAACAGCAATGCT 58.791 36.000 0.00 0.00 39.14 3.79
3830 5839 4.394795 CTCGAATTACAAGGTCGCAAAAG 58.605 43.478 0.00 0.00 34.80 2.27
3836 5845 2.295253 AGCCTCGAATTACAAGGTCG 57.705 50.000 0.00 0.00 36.12 4.79
3842 5851 6.811253 AAATGTGTAAAGCCTCGAATTACA 57.189 33.333 8.04 8.04 37.24 2.41
4051 6061 4.202567 TGAATTCAGAAAGGGGTTACAGCT 60.203 41.667 3.38 0.00 0.00 4.24
4096 6108 5.048782 TCTGAATAATTTGCTGAAACTGCGT 60.049 36.000 0.00 0.00 0.00 5.24
4097 6109 5.393124 TCTGAATAATTTGCTGAAACTGCG 58.607 37.500 0.00 0.00 0.00 5.18
4358 6419 6.390721 TGACTTGCTTAGTAGTGTTCATCTC 58.609 40.000 0.00 0.00 37.17 2.75
4413 6483 1.876156 CAGAACTTCAGAACCTGGTGC 59.124 52.381 0.00 0.00 31.51 5.01
4458 6528 8.814038 AATTTATTTGAGAGCAAGTGGATAGT 57.186 30.769 0.00 0.00 35.04 2.12
4567 6637 1.571919 GACACAACAGCTTCGAGTGT 58.428 50.000 9.88 9.88 45.21 3.55
4643 6717 1.820056 TTCGCCAACAACTCCGCAA 60.820 52.632 0.00 0.00 0.00 4.85
4661 6735 1.414181 CAGCATTGTATCTCCGAGGGT 59.586 52.381 0.00 0.00 0.00 4.34
4723 6797 1.525765 TTGGCTTTGAGCAGCGACA 60.526 52.632 2.04 0.00 44.75 4.35
4772 6850 2.878406 CAACAAGTTGGTGTCCGATCTT 59.122 45.455 13.00 0.00 36.95 2.40
4877 6976 4.111016 CTGTGCAGCGGTGGCATG 62.111 66.667 17.54 8.27 44.11 4.06
4908 7007 3.241530 TCCAGGCTTGGTGCGAGT 61.242 61.111 15.41 0.00 45.26 4.18
4917 7016 1.693640 CAATCCCCACTCCAGGCTT 59.306 57.895 0.00 0.00 0.00 4.35
5573 7991 9.850628 ATGAACAAAGAAATGAGACACAATATG 57.149 29.630 0.00 0.00 0.00 1.78
5699 9597 9.398170 CTTTTTGTGGTTAGTGACTATGAAATG 57.602 33.333 0.00 0.00 0.00 2.32
5739 9640 9.288124 CAAGAATCGTATCTGCATAGAGATTAG 57.712 37.037 0.00 0.00 36.14 1.73
5740 9641 8.246871 CCAAGAATCGTATCTGCATAGAGATTA 58.753 37.037 0.00 0.00 36.14 1.75
5898 9812 1.659335 CAAGTTTGCTGTGCTGCCG 60.659 57.895 0.00 0.00 0.00 5.69
6018 9933 3.393970 CCTCGCCCTCTTCTGCCA 61.394 66.667 0.00 0.00 0.00 4.92
6055 9994 0.458543 CTTCCTCACCGTCACCATCG 60.459 60.000 0.00 0.00 0.00 3.84
6064 10003 0.739112 GCTCTTGCTCTTCCTCACCG 60.739 60.000 0.00 0.00 36.03 4.94
6128 10067 4.412199 TGCCACCTAGCTTATGGTCTAAAT 59.588 41.667 11.10 0.00 35.79 1.40
6217 10156 2.965572 TCTTTGCTTGCTTGCTTGTT 57.034 40.000 3.47 0.00 0.00 2.83
6218 10157 2.428171 TCTTCTTTGCTTGCTTGCTTGT 59.572 40.909 3.47 0.00 0.00 3.16
6241 10180 5.420421 TGTTTTCCACTTCAAAATCTGACCA 59.580 36.000 0.00 0.00 32.21 4.02
6242 10181 5.901552 TGTTTTCCACTTCAAAATCTGACC 58.098 37.500 0.00 0.00 32.21 4.02
6243 10182 7.809806 CCTATGTTTTCCACTTCAAAATCTGAC 59.190 37.037 0.00 0.00 32.21 3.51
6245 10184 7.092716 CCCTATGTTTTCCACTTCAAAATCTG 58.907 38.462 0.00 0.00 0.00 2.90
6246 10185 6.295292 GCCCTATGTTTTCCACTTCAAAATCT 60.295 38.462 0.00 0.00 0.00 2.40
6247 10186 5.869344 GCCCTATGTTTTCCACTTCAAAATC 59.131 40.000 0.00 0.00 0.00 2.17
6248 10187 5.306678 TGCCCTATGTTTTCCACTTCAAAAT 59.693 36.000 0.00 0.00 0.00 1.82
6249 10188 4.651503 TGCCCTATGTTTTCCACTTCAAAA 59.348 37.500 0.00 0.00 0.00 2.44
6312 10253 2.635427 GGAGGGAGTAGGAAATAGCCAG 59.365 54.545 0.00 0.00 0.00 4.85
6324 10265 4.687262 ATATTATGGGACGGAGGGAGTA 57.313 45.455 0.00 0.00 0.00 2.59
6325 10266 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
6326 10267 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
6327 10268 5.279562 TCTTATATTATGGGACGGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
6328 10269 5.623824 CGTTCTTATATTATGGGACGGAGGG 60.624 48.000 0.00 0.00 0.00 4.30
6329 10270 5.047519 ACGTTCTTATATTATGGGACGGAGG 60.048 44.000 13.18 0.00 0.00 4.30
6330 10271 6.022163 ACGTTCTTATATTATGGGACGGAG 57.978 41.667 13.18 0.00 0.00 4.63
6331 10272 6.409524 AACGTTCTTATATTATGGGACGGA 57.590 37.500 0.00 0.00 0.00 4.69
6332 10273 7.486802 AAAACGTTCTTATATTATGGGACGG 57.513 36.000 0.00 1.76 0.00 4.79
6333 10274 8.605746 TCAAAAACGTTCTTATATTATGGGACG 58.394 33.333 0.00 9.33 0.00 4.79
6334 10275 9.712359 GTCAAAAACGTTCTTATATTATGGGAC 57.288 33.333 0.00 0.00 0.00 4.46
6335 10276 9.451002 TGTCAAAAACGTTCTTATATTATGGGA 57.549 29.630 0.00 0.00 0.00 4.37
6336 10277 9.498307 GTGTCAAAAACGTTCTTATATTATGGG 57.502 33.333 0.00 0.00 0.00 4.00
6342 10283 9.485206 ACACTAGTGTCAAAAACGTTCTTATAT 57.515 29.630 22.95 0.00 40.24 0.86
6343 10284 8.876275 ACACTAGTGTCAAAAACGTTCTTATA 57.124 30.769 22.95 0.00 40.24 0.98
6344 10285 7.781548 ACACTAGTGTCAAAAACGTTCTTAT 57.218 32.000 22.95 0.00 40.24 1.73
6365 10306 9.498307 CCCATAATATAAGAACGTTTTTGACAC 57.502 33.333 13.87 0.00 0.00 3.67
6366 10307 9.451002 TCCCATAATATAAGAACGTTTTTGACA 57.549 29.630 13.87 0.01 0.00 3.58
6367 10308 9.712359 GTCCCATAATATAAGAACGTTTTTGAC 57.288 33.333 13.87 5.89 0.00 3.18
6368 10309 8.605746 CGTCCCATAATATAAGAACGTTTTTGA 58.394 33.333 13.87 2.81 0.00 2.69
6369 10310 7.853929 CCGTCCCATAATATAAGAACGTTTTTG 59.146 37.037 13.87 0.00 0.00 2.44
6370 10311 7.769970 TCCGTCCCATAATATAAGAACGTTTTT 59.230 33.333 9.22 9.22 0.00 1.94
6371 10312 7.274447 TCCGTCCCATAATATAAGAACGTTTT 58.726 34.615 0.46 0.00 0.00 2.43
6372 10313 6.819284 TCCGTCCCATAATATAAGAACGTTT 58.181 36.000 0.46 0.00 0.00 3.60
6373 10314 6.409524 TCCGTCCCATAATATAAGAACGTT 57.590 37.500 0.00 0.00 0.00 3.99
6374 10315 5.047519 CCTCCGTCCCATAATATAAGAACGT 60.048 44.000 0.00 0.00 0.00 3.99
6375 10316 5.408356 CCTCCGTCCCATAATATAAGAACG 58.592 45.833 0.00 0.00 0.00 3.95
6376 10317 5.482878 TCCCTCCGTCCCATAATATAAGAAC 59.517 44.000 0.00 0.00 0.00 3.01
6377 10318 5.657446 TCCCTCCGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
6378 10319 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
6379 10320 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
6380 10321 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
6381 10322 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
6382 10323 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
6383 10324 3.400322 ACTACTCCCTCCGTCCCATAATA 59.600 47.826 0.00 0.00 0.00 0.98
6384 10325 2.179424 ACTACTCCCTCCGTCCCATAAT 59.821 50.000 0.00 0.00 0.00 1.28
6385 10326 1.572415 ACTACTCCCTCCGTCCCATAA 59.428 52.381 0.00 0.00 0.00 1.90
6386 10327 1.229131 ACTACTCCCTCCGTCCCATA 58.771 55.000 0.00 0.00 0.00 2.74
6387 10328 0.338814 AACTACTCCCTCCGTCCCAT 59.661 55.000 0.00 0.00 0.00 4.00
6388 10329 0.613853 CAACTACTCCCTCCGTCCCA 60.614 60.000 0.00 0.00 0.00 4.37
6389 10330 0.324091 TCAACTACTCCCTCCGTCCC 60.324 60.000 0.00 0.00 0.00 4.46
6390 10331 1.777941 ATCAACTACTCCCTCCGTCC 58.222 55.000 0.00 0.00 0.00 4.79
6391 10332 6.645790 TTATTATCAACTACTCCCTCCGTC 57.354 41.667 0.00 0.00 0.00 4.79
6392 10333 6.781014 TCATTATTATCAACTACTCCCTCCGT 59.219 38.462 0.00 0.00 0.00 4.69
6393 10334 7.091443 GTCATTATTATCAACTACTCCCTCCG 58.909 42.308 0.00 0.00 0.00 4.63
6394 10335 7.016268 TGGTCATTATTATCAACTACTCCCTCC 59.984 40.741 0.00 0.00 0.00 4.30
6395 10336 7.873505 GTGGTCATTATTATCAACTACTCCCTC 59.126 40.741 0.00 0.00 0.00 4.30
6396 10337 7.202102 GGTGGTCATTATTATCAACTACTCCCT 60.202 40.741 0.00 0.00 0.00 4.20
6397 10338 6.935208 GGTGGTCATTATTATCAACTACTCCC 59.065 42.308 0.00 0.00 0.00 4.30
6398 10339 7.506114 TGGTGGTCATTATTATCAACTACTCC 58.494 38.462 0.00 0.00 0.00 3.85
6399 10340 8.958119 TTGGTGGTCATTATTATCAACTACTC 57.042 34.615 0.00 0.00 0.00 2.59
6400 10341 8.768397 TCTTGGTGGTCATTATTATCAACTACT 58.232 33.333 0.00 0.00 0.00 2.57
6401 10342 8.958119 TCTTGGTGGTCATTATTATCAACTAC 57.042 34.615 0.00 0.00 0.00 2.73
6402 10343 9.778741 GATCTTGGTGGTCATTATTATCAACTA 57.221 33.333 0.00 0.00 0.00 2.24
6427 10368 8.293867 CGTGAAAATGGAGGTTGTAAAAATAGA 58.706 33.333 0.00 0.00 0.00 1.98
6458 13645 0.179051 CCTCTGATTGCTCTCTGCCC 60.179 60.000 0.00 0.00 42.00 5.36
6465 13652 2.495270 TGACTGTCTCCTCTGATTGCTC 59.505 50.000 9.51 0.00 0.00 4.26
6471 13658 3.029570 CCATGATGACTGTCTCCTCTGA 58.970 50.000 9.51 0.00 0.00 3.27
6489 13676 2.360350 CCAGTTGACTGCCGCCAT 60.360 61.111 5.62 0.00 42.47 4.40
6546 13733 3.650942 ACCCTGTCTCCAGTCAAAACATA 59.349 43.478 0.00 0.00 36.95 2.29
6581 13772 2.086869 CCCTCTGTTTCCGACGTACTA 58.913 52.381 0.00 0.00 0.00 1.82
6594 13785 1.885049 ATGAGCATGTACCCCTCTGT 58.115 50.000 0.00 0.00 0.00 3.41
6600 13791 6.054860 AGTTATCCATATGAGCATGTACCC 57.945 41.667 3.65 0.00 0.00 3.69
6610 13801 6.151312 GCGAGGAGTAGAAGTTATCCATATGA 59.849 42.308 3.65 0.00 34.08 2.15
6617 13808 5.221263 TGGAATGCGAGGAGTAGAAGTTATC 60.221 44.000 0.00 0.00 0.00 1.75
6625 13816 6.274157 ACTAATATGGAATGCGAGGAGTAG 57.726 41.667 0.00 0.00 0.00 2.57
6632 13823 4.881273 AGCAACAACTAATATGGAATGCGA 59.119 37.500 0.00 0.00 33.81 5.10
6633 13824 5.173774 AGCAACAACTAATATGGAATGCG 57.826 39.130 0.00 0.00 33.81 4.73
6634 13825 8.807581 GTTTTAGCAACAACTAATATGGAATGC 58.192 33.333 0.00 0.00 32.35 3.56
6667 13858 4.704057 TCGCTGATGCAGATGTATCTAGAT 59.296 41.667 10.73 10.73 37.90 1.98
6668 13859 4.074970 TCGCTGATGCAGATGTATCTAGA 58.925 43.478 11.42 0.00 37.90 2.43
6669 13860 4.431661 TCGCTGATGCAGATGTATCTAG 57.568 45.455 11.42 8.48 37.90 2.43
6670 13861 4.460382 TCATCGCTGATGCAGATGTATCTA 59.540 41.667 11.42 0.00 43.57 1.98
6680 13871 5.138125 TCATATTAGTCATCGCTGATGCA 57.862 39.130 11.98 0.00 39.63 3.96
6683 13874 7.315890 TCGATTTCATATTAGTCATCGCTGAT 58.684 34.615 0.00 0.00 34.79 2.90
6688 13879 6.621613 TCCCTCGATTTCATATTAGTCATCG 58.378 40.000 0.00 0.00 35.85 3.84
6782 14362 6.907212 CGTCTATTTGCTGGTTATCATGTTTC 59.093 38.462 0.00 0.00 0.00 2.78
6836 14416 4.347813 TCTTTTGCGTTTTCTACTTGCAC 58.652 39.130 0.00 0.00 34.90 4.57
6878 14458 3.058639 CCCTCTCGTTTGCTTTTCTTCTG 60.059 47.826 0.00 0.00 0.00 3.02
6921 14686 8.097038 AGTTCAACTCTCAATGAAAGCACTATA 58.903 33.333 0.00 0.00 37.31 1.31
6925 14690 5.008019 TGAGTTCAACTCTCAATGAAAGCAC 59.992 40.000 18.49 0.00 45.27 4.40
7031 14796 6.124340 TCCGTTGGATCAGTGTAGACTAATA 58.876 40.000 0.00 0.00 0.00 0.98
7036 14801 3.802948 ATCCGTTGGATCAGTGTAGAC 57.197 47.619 0.00 0.00 38.09 2.59
7064 14829 3.339253 TGATGTTGCTACAGTGATGCT 57.661 42.857 7.16 0.00 37.77 3.79
7084 14849 3.312736 AGTGGTTTTGGACAGGACAAT 57.687 42.857 0.00 0.00 0.00 2.71
7185 14951 5.356470 CCCTCTCTGAAATGAATTCCAGAAC 59.644 44.000 11.66 0.00 37.22 3.01
7190 14956 2.954989 GGCCCTCTCTGAAATGAATTCC 59.045 50.000 2.27 0.00 37.22 3.01
7261 15027 0.671781 GAGAGGCACACGCAGTTCAT 60.672 55.000 0.00 0.00 41.61 2.57
7266 15032 2.871182 TATTAGAGAGGCACACGCAG 57.129 50.000 0.00 0.00 41.24 5.18


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.